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. 2015 Jan 24;31(11):1780–1787. doi: 10.1093/bioinformatics/btv038

Table 1.

Comparison of the partial AUC of competing regulatory network learning algorithms for the first simulated network. mean.pAUC.1 and mean.pAUC.2 are the average of partial AUC over 30 target mRNAs/proteins for the first and the second algorithm, respectively

Alg1 Alg2 Sample size Target mean.pAUC.1 mean.pAUC.2 wilcox. pval
MBSmRN MMHC 1250 mRNA 0.9226 0.8487 0.01463
MBSmRN Lasso 1250 mRNA 0.9226 0.6130 8.41E-09
MBSmRN Lasso (no protein)a 1250 mRNA 0.9226 0.5328 2.38E-11
MMHC Lasso 1250 mRNA 0.8487 0.6130 1.29E-07
MBSmRN MMHC 250 mRNA 0.9068 0.8228 0.005421
MBSmRN Lasso 250 mRNA 0.9068 0.8169 0.009452
MBSmRN Lasso (no protein) 250 mRNA 0.9068 0.6112 2.42E-09
MMHC Lasso 250 mRNA 0.8228 0.8169 0.80688
MBSmRN MMHC 50 mRNA 0.8182 0.6849 0.000688
MBSmRN Lasso 50 mRNA 0.8182 0.8502 0.41131
MBSmRN Lasso (no protein) 50 mRNA 0.8182 0.6388 3.17E-06
MMHC Lasso 50 mRNA 0.6849 0.8502 8.77E-06
MBSNIG MMHC 1250 Protein 0.9970 0.7391 6.09E-10
MBSNIG Lasso 1250 Protein 0.9970 0.5905 2.64E-12
MBSNIG Lasso (no protein) 1250 Protein 0.9970 0.5070 2.35E-12
MMHC Lasso 1250 Protein 0.7391 0.5905 5.59E-05
MBSNIG MMHC 250 Protein 0.9967 0.7067 4.10E-11
MBSNIG Lasso 250 Protein 0.9967 0.7460 1.12E-11
MBSNIG Lasso (no protein) 250 Protein 0.9967 0.5029 1.52E-12
MMHC Lasso 250 Protein 0.7067 0.7460 0.420141
MBSNIG MMHC 50 Protein 0.9372 0.6214 7.56E-09
MBSNIG Lasso 50 Protein 0.9372 0.8257 7.04E-05
MBSNIG Lasso (no protein) 50 Protein 0.9372 0.5080 2.90E-11
MMHC Lasso 50 Protein 0.6214 0.8257 1.05E-06

aLasso algorithm is applied to simulation data with the protein data removed.